- Updated SQL query to get input data to generate commands
- corrected condition to get unmatched normal
- Fixed vcf header, as it was copied twice in the outfile
- Added explicit check for normal sample using SIP_ATTRIBUTES table
- updated defualt project ini folder to cgpVaf
- Updated verison
- Added condition to ignore writing progress file if augment only option is selected
- Improved and corrected setup.sh and location of Makefile.PL
*added test to check final result removal *chnaged bio:db:sam version to 1.42
*changed installation path to bin from perl/bin in setup.sh
*fixed test to created progress file path
*updated condition to create outfile only if it is absent
*updated file postfix to _vaf
*Added tumour sample name as postfix to tmp folder
*Added setup.sh
*Fixed bug in unmapped mate retrival
*Added option to accept vcf file as command line input
- Fixed readme file
- Contains pre-calculated VAF values in FORMAT field
- Per chromosome progress tracking i.e., failed jobs can be resumed from last unsuccessful chromosome
- Added setup script script
- Added condition to check snps that fall at the end of chromosome
- Added option to create config file for user defined list of samples